"It is important that all the nodes known to be down are given as arguments
on the command line. This is because nodes which are not listed are
assumed to be UP and will be indicated as such if they were previously
marked DOWN."
marking a node as down is different than marking a node as offline. Are you
sure you see the problem with -o and you aren't using -d to mark them down?
current versions of torque do not allow you to mark nodes down with the -d
command
I have been using torque for a long time (well before the versions you are
using) and pbsnodes -o has always worked as expected for me.
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